Man pages for AndersenLab/linkagemapping
Functions for the Mapping of Andersen Lab RIAILs and RILs

AF16xHK104crossCross object for AF16xHK104 C. brggsae RIAILs
AF16xHK104markersMarker/position lookup table for AF16xHK104 RIAILs
annotate_lodsAnnotate LOD peaks with variance explained, effect size, and...
checkeQTLintervalsFind expression QTL from the Rockman dataset within a...
count_strains_per_traitCount number of strains with data for each phenotype from...
effectplotPlot effect size by marker
extract_genotypeExtract genotype matrix from cross structure and recode as...
extract_scaled_phenotypeExtract phenotype matrix from cross object, mean center and...
findCBfosmidsFind CB4856 fosmids that tile across a given interval
findindelsFind indels to generate primers
findN2fosmidsFind N2 fosmids that tile across a given interval
FindRIAILsforNILsFind RIAILs for generating NILs to isolate a genomic region
fsearchMap all of the traits in a given cross object with forward...
load_cross_objLoad Cross Obj
lodplotPlot all lod scores for a forward search mapping by iteration
mapformatGet the LOD value for each marker based on the correlation...
maxlodplotPlot max lod scores for a forward search mapping
mergephenoMerge the cross object and the phenotype data frame using a...
N2xCB4856crossCross object for N2xCB4856 RIAILs
N2xCB4856cross_fullWhole genome cross object for N2xCB4856 RIAILs
N2xCB4856markersMarker/position lookup table for N2xCB4856 RIAILs
N2xLSJ2crossCross object for N2xLSJ2 RIAILs
N2xLSJ2markersMarker/position lookup table for N2xLSJ2 RIAILs
pxgplotPlot the phenotype by genotype split at each peak marker in a...
pxgplot_parPlot the phenotype by genotype split at each peak marker in a...
AndersenLab/linkagemapping documentation built on June 8, 2018, 2:54 a.m.